DreINT0099143 @ danRer10
Intron Retention
Gene
ENSDARG00000099470 | muc5.3
Description
mucin 5.3 [Source:ZFIN;Acc:ZDB-GENE-040426-1562]
Coordinates
chr7:72083512-72085619:-
Coord C1 exon
chr7:72085358-72085619
Coord A exon
chr7:72083627-72085357
Coord C2 exon
chr7:72083512-72083626
Length
1731 bp
Sequences
Splice sites
5' ss Seq
GACGTGAGT
5' ss Score
9.22
3' ss Seq
TGATCCCGCTCTCTCTGTAGAGT
3' ss Score
10.41
Exon sequences
Seq C1 exon
GACTGACCTCACAGCACAACGAGCTGATCTGCAGCACATGGGGAAACTACCATTACAAGACCTTCGACGGCGATTACTTCCAGCTCCCGTCGACCTGCAACTACATCCTGACGTCACACTGTTCCAGCAGTTACGAAGACTTCAATGTCCAGCTGAGACACGAGCTGCTGAACAACGAGCCCACCGTCAGCAAGATCACCATGAAGCTGCAGGGCACGATCATCGAGCTGAGCAGAGACTCTCTCAGTGTTAATGGACAGAC
Seq A exon
GTGAGTCAATCTGCTTACAGGAGTGCACTGGCTCTCAGTGTTGGGGAAACGCACTTTTATGTGTTGCGTGCAATCTTGCAGTACTTTTTTACTAGTTTTTTAAAACCTTAAAGTGCAATTTAAAGACTTAATTAGGTCAACTAGGCAAGTTAGGGCAGTGGTTCCCAAAGTGGAGGTCGGGACACCTCACAGGGTCGCGGGATAGTGAGGACGGGTTGCTTGGTGCTTTCCAAAAATGTAATTCATTTAATTAAACCATTAGAATTTGCATATTTTATCCATAACCAAAAGAAGATAAAAATAGTAGTTACTAGTTACGTTTAGAAAACCAACATGCATGTGTTGTGATTACGTTATATTAAAGACAAAGCAATAGTGTCAGATACAGCAGATTGATTTTATGGCACCAATAAGTTAAACTTTAACTATTAAAAAATATACAGGCCACAACTGAACATGGAGGATGATCTCCAAAGATACATGGAACATGGAGTGGCGTTCTTCAAAGTTAAATGAAAAATAGACATGGGCCTATTTGTGTTTGGGCACCTTGCATGCATATATATATATACAGTTGAAGTCTGAGTTATTAACCCCCCTTTGAATTTTATTTTCTTAATATTTCCCAAATTATGTTTACCAGAGCAAGGACATTTTCACAGTATGTCTGATAATATTTTTTCTTCTAGAATAAAGTCTTATTTGTTTTATTTCAGTTAGAACAAAAGCAGTTTTAAATTTTTTAAACACCATTTTACGGACAATATTATTAGCCCCTTTAAGCTTTTTTTTTTTGATAGTCTACAGAACAAACCATCGTTATACAATAATTGCCTAATTACCCTAACCTGCCTAGTTACCCTAATTAACCTAGTTAAGCCTTTAAATGTCACTTTAAGCTGTATAGAAGTGTCTTGAAGAATATCTAGTCTAATATTATTTACTGTCATCATGACAAAGATAAAATAAATCAGTTATTAGAAATGAATTATTAAAACTATTATGATTAGAAATGTGTTGTAGAAATCTGCTCAGCGCTAAACAGAAATTGGGGAAAGAATAAACAGGGGGCGAATAATTCAGGGGGGCTGATAATTCTGACTTCATGGGACGTAAGCTTGGATCATAAGTGCAGAATGACTATATATTTACAGTGTAAGAGTAAATAGAGCTAGAACATATAAAAAACAATCTCCACCTAACAGATTTTAAAAGGCTTAAACAGCTTGTAAACATACGATATTAGCTCAAAACCTCAATCCATTAGGACTCCTGTCTTAGGTGCTTGATTCATGCTGAGTTTAACGTTTGTATTGTGAGGCAGTGGAACACTTTCATGTCCAGTCATAAATATAAAACTGTGAATGACAGTCTTTGCTCTCTTATTTGACTTTATTCATGTACTAGGCTGTGACCATTTATTTGATATATCAGTGCAGTTATAAATTCCTCCCAGATTCAACTCCTGTCTCGGGTCTTTGGAGTAATTACTATCATTTTGTTGTAATGTTGTAGCTGTGTAATAGTTGTATAAGGGTAAAGATATTAGGCAACTTATTTAAGGCTCCTTTTGACAAAAAGCTTGTTGTTCATTAATAACAATCACACAATGACTGCTTTAAAAGTTTAAAATGTAAACAGATCATGTTACTCACATAGTGGGAAATTGTTGAATTTAAGTGTTGTAAAGGTAAAAGCACACTGAGCCTAATGATCCCGCTCTCTCTGTAG
Seq C2 exon
AGTAACACTGCCATACAGCAGCGCTGAAGTCTTCATCGAGAGGGTGACCTCTTATATCTCAATCAAGGCGGCTTTGGGACTAGTAGCCATGTGGAATGAAGATGACTCCTTCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000099470:ENSDART00000162367:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009420=VWD=PU(51.7=86.4)
A:
NA
C2:
PF0009420=VWD=FE(25.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGACCTCACAGCACAACGAG
R:
TACTAGTCCCAAAGCCGCCTT
Band lengths:
345-2076
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]